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Yorodumi- PDB-6fn8: Domain II of the HUMAN COPPER CHAPERONE FOR SUPEROXIDE DISMUTASE ... -
+Open data
-Basic information
Entry | Database: PDB / ID: 6fn8 | |||||||||||||||
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Title | Domain II of the HUMAN COPPER CHAPERONE FOR SUPEROXIDE DISMUTASE at 1.55 A resolution | |||||||||||||||
Components | Copper chaperone for superoxide dismutase | |||||||||||||||
Keywords | CHAPERONE / ImgG-like / copper-chaperone / zinc-binding / protein maturation | |||||||||||||||
Function / homology | Function and homology information protein maturation by copper ion transfer / superoxide dismutase copper chaperone activity / superoxide metabolic process / Detoxification of Reactive Oxygen Species / protein-disulfide reductase activity / removal of superoxide radicals / cellular response to oxidative stress / cadherin binding / copper ion binding / nucleus ...protein maturation by copper ion transfer / superoxide dismutase copper chaperone activity / superoxide metabolic process / Detoxification of Reactive Oxygen Species / protein-disulfide reductase activity / removal of superoxide radicals / cellular response to oxidative stress / cadherin binding / copper ion binding / nucleus / cytosol / cytoplasm Similarity search - Function | |||||||||||||||
Biological species | Homo sapiens (human) | |||||||||||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / Resolution: 1.55 Å | |||||||||||||||
Authors | Sala, F.A. / Wright, G.S.A. / Antonyuk, S.V. / Garratt, R.C. / Hasnain, S.S. | |||||||||||||||
Funding support | United Kingdom, Brazil, 4items
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Citation | Journal: Plos Biol. / Year: 2019 Title: Molecular recognition and maturation of SOD1 by its evolutionarily destabilised cognate chaperone hCCS. Authors: Sala, F.A. / Wright, G.S.A. / Antonyuk, S.V. / Garratt, R.C. / Hasnain, S.S. | |||||||||||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 6fn8.cif.gz | 77.5 KB | Display | PDBx/mmCIF format |
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PDB format | pdb6fn8.ent.gz | 60.7 KB | Display | PDB format |
PDBx/mmJSON format | 6fn8.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/fn/6fn8 ftp://data.pdbj.org/pub/pdb/validation_reports/fn/6fn8 | HTTPS FTP |
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-Related structure data
-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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-Components
#1: Protein | Mass: 16016.752 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Gene: CCS / Production host: Escherichia coli BL21 (bacteria) / References: UniProt: O14618 #2: Chemical | #3: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 2.48 Å3/Da / Density % sol: 50.47 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, hanging drop / pH: 7 Details: 0.2 M Sodium Chloride, 20% (w/v) PEG 6000; 0.1 M Hepes |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: SOLEIL / Beamline: PROXIMA 1 / Wavelength: 0.97857 Å |
Detector | Type: DECTRIS PILATUS 6M / Detector: PIXEL / Date: Jun 5, 2017 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.97857 Å / Relative weight: 1 |
Reflection | Resolution: 1.55→61.09 Å / Num. obs: 47679 / % possible obs: 99.9 % / Redundancy: 4.5 % / Net I/σ(I): 1.5 |
Reflection shell | Resolution: 1.55→1.55 Å |
-Processing
Software |
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Refinement | Resolution: 1.55→61.09 Å / Cor.coef. Fo:Fc: 0.962 / Cor.coef. Fo:Fc free: 0.947 / SU B: 1.749 / SU ML: 0.061 / Cross valid method: THROUGHOUT / ESU R: 0.083 / ESU R Free: 0.084 / Stereochemistry target values: MAXIMUM LIKELIHOOD
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Solvent computation | Ion probe radii: 0.8 Å / Shrinkage radii: 0.8 Å / VDW probe radii: 1.2 Å / Solvent model: MASK | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 20.082 Å2
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Refinement step | Cycle: 1 / Resolution: 1.55→61.09 Å
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Refine LS restraints |
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